BamQC report ----------------------------------- >>>>>>> Input bam file = SRR10524745.sorted.bam outfile = /home/luna/rawdata/yangyxdownload/SRP215441/SRP215441.result/quality.files/genome_results.txt >>>>>>> Reference number of bases = 3,095,693,983 bp number of contigs = 25 >>>>>>> Globals number of windows = 424 number of reads = 1,855,365 number of mapped reads = 1,686,619 (90.9%) number of supplementary alignments = 6,475 (0.35%) number of secondary alignments = 0 number of mapped bases = 96,569,491 bp number of sequenced bases = 96,537,816 bp number of aligned bases = 0 bp number of duplicated reads (estimated) = 67,217 duplication rate = 2.96% >>>>>>> Insert size mean insert size = 0 std insert size = 0 median insert size = 0 >>>>>>> Mapping quality mean mapping quality = 44.4446 >>>>>>> ACTG content number of A's = 24,169,157 bp (25.04%) number of C's = 17,011,965 bp (17.62%) number of T's = 30,490,155 bp (31.58%) number of G's = 24,854,394 bp (25.75%) number of N's = 12,145 bp (0.01%) GC percentage = 43.37% >>>>>>> Mismatches and indels general error rate = 0.0052 number of mismatches = 493,700 number of insertions = 6,629 mapped reads with insertion percentage = 0.39% number of deletions = 19,649 mapped reads with deletion percentage = 1.16% homopolymer indels = 42.1% >>>>>>> Coverage mean coverageData = 0.0312X std coverageData = 0.2713X There is a 2.76% of reference with a coverageData >= 1X There is a 0.25% of reference with a coverageData >= 2X There is a 0.04% of reference with a coverageData >= 3X There is a 0.01% of reference with a coverageData >= 4X There is a 0.01% of reference with a coverageData >= 5X There is a 0% of reference with a coverageData >= 6X There is a 0% of reference with a coverageData >= 7X There is a 0% of reference with a coverageData >= 8X There is a 0% of reference with a coverageData >= 9X There is a 0% of reference with a coverageData >= 10X There is a 0% of reference with a coverageData >= 11X There is a 0% of reference with a coverageData >= 12X There is a 0% of reference with a coverageData >= 13X There is a 0% of reference with a coverageData >= 14X There is a 0% of reference with a coverageData >= 15X There is a 0% of reference with a coverageData >= 16X There is a 0% of reference with a coverageData >= 17X There is a 0% of reference with a coverageData >= 18X There is a 0% of reference with a coverageData >= 19X There is a 0% of reference with a coverageData >= 20X There is a 0% of reference with a coverageData >= 21X There is a 0% of reference with a coverageData >= 22X There is a 0% of reference with a coverageData >= 23X There is a 0% of reference with a coverageData >= 24X There is a 0% of reference with a coverageData >= 25X There is a 0% of reference with a coverageData >= 26X There is a 0% of reference with a coverageData >= 27X There is a 0% of reference with a coverageData >= 28X There is a 0% of reference with a coverageData >= 29X There is a 0% of reference with a coverageData >= 30X There is a 0% of reference with a coverageData >= 31X There is a 0% of reference with a coverageData >= 32X There is a 0% of reference with a coverageData >= 33X There is a 0% of reference with a coverageData >= 34X There is a 0% of reference with a coverageData >= 35X There is a 0% of reference with a coverageData >= 36X There is a 0% of reference with a coverageData >= 37X There is a 0% of reference with a coverageData >= 38X There is a 0% of reference with a coverageData >= 39X There is a 0% of reference with a coverageData >= 40X There is a 0% of reference with a coverageData >= 41X There is a 0% of reference with a coverageData >= 42X There is a 0% of reference with a coverageData >= 43X There is a 0% of reference with a coverageData >= 44X There is a 0% of reference with a coverageData >= 45X There is a 0% of reference with a coverageData >= 46X There is a 0% of reference with a coverageData >= 47X There is a 0% of reference with a coverageData >= 48X There is a 0% of reference with a coverageData >= 49X There is a 0% of reference with a coverageData >= 50X There is a 0% of reference with a coverageData >= 51X >>>>>>> Coverage per contig chr1 249250621 7661394 0.030737712785879077 0.3798589513696057 chr2 243199373 8140616 0.03347301392919298 0.41152875417612017 chr3 198022430 6376813 0.03220247827480958 0.20106369238394492 chr4 191154276 6216018 0.03251833090042935 0.24104058300484033 chr5 180915260 5782698 0.03196357233767898 0.19779776826046042 chr6 171115067 5515501 0.03223270222019666 0.2192516765002948 chr7 159138663 5311045 0.03337369373274174 0.33587933366814693 chr8 146364022 4821724 0.032943369102005134 0.24834576782495923 chr9 141213431 4074008 0.028850003651564843 0.2286356848624981 chr10 135534747 4760256 0.03512203405669839 0.3514313929550115 chr11 135006516 4368273 0.03235601606073591 0.24179891507560114 chr12 133851895 4384099 0.032753357731692925 0.20298206065750035 chr13 115169878 3000352 0.02605153406518326 0.17918647924805448 chr14 107349540 2893017 0.02694950532624546 0.18971020009328557 chr15 102531392 2761150 0.026929801167626787 0.18161962592546724 chr16 90354753 2908371 0.032188356488562365 0.22473102136549067 chr17 81195210 2737367 0.03371340501490174 0.21470617980089082 chr18 78077248 2520910 0.03228738287497018 0.37343392484908533 chr19 59128983 2100711 0.03552760242806814 0.31248560114576257 chr20 63025520 2051555 0.03255117926833448 0.20910826785341374 chr21 48129895 1260085 0.026180921441860613 0.20399010051854008 chr22 51304566 1202021 0.023429123248016562 0.17199963924822728 chrMT 16571 34515 2.082855591092873 1.9142222412771766 chrX 155270560 5353772 0.034480277523311564 0.22390185159895354 chrY 59373566 333220 0.005612261860774878 0.1608071113065656